Installation¶
Dependency¶
gcc 4.8+
orclang 3.4+
andcmake 3.2+
is neededOnly python>=3.7 is supported
CIRI-long requires pysam lib, which need executable binary and header of zlib, bzip2, xz, please refer to documentation of pysam for installation instructions
all python dependencies are listed in requirements.txt
samtools
version1.9
or higherpython binding of minimap2
Install CIRI-long from source code¶
Installation under virtualenv
is highly recommended. You can simply clone the whole repository, then use make
to start a complete installation
git clone https://github.com/bioinfo-biols/CIRI-long.git CIRI-long
cd CIRI-long
# Create virtual environment
python3 -m venv venv
# Activate virtualenv
source ./venv/bin/activate
# Install CIRI-long
make
# Test for installation
make test
The package should take less than 1 min to install on a normal computer.
Install CIRI-long using pip¶
pip install CIRI-long